Protein Info for Shew_3406 in Shewanella loihica PV-4

Annotation: secretion protein HlyD family protein (RefSeq)

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 200 250 300 358 signal peptide" amino acids 1 to 22 (22 residues), see Phobius details PF13533: Biotin_lipoyl_2" amino acids 44 to 91 (48 residues), 41.2 bits, see alignment 2.3e-14 PF00529: CusB_dom_1" amino acids 54 to 336 (283 residues), 33.4 bits, see alignment E=6.8e-12 PF16576: HlyD_D23" amino acids 200 to 286 (87 residues), 65.1 bits, see alignment E=1.1e-21 PF13437: HlyD_3" amino acids 209 to 327 (119 residues), 59.9 bits, see alignment E=7.1e-20

Best Hits

KEGG orthology group: K03543, multidrug resistance protein A (inferred from 100% identity to slo:Shew_3406)

Predicted SEED Role

"Multidrug resistance protein A"

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See A3QIH4 at UniProt or InterPro

Protein Sequence (358 amino acids)

>Shew_3406 secretion protein HlyD family protein (RefSeq) (Shewanella loihica PV-4)
MSKRRIFIVLPLLLLAVVVGGYYWWSQVRFIESTDNAYVEADISNISVKVPGYVVTAKVT
DNQHVEQGQLLAELESNQYRAKVSQSQASLQSSQAELQTLSAKVTLQQAIIRQAAAGVAS
AEAEKIRAEQQLKRTTKLKHRDYSSQDEVDQATAAFDSAVGHLDEAKAALVAKQAELAVL
NAQLNQSQSQVAQAKAGLELAEIQLADTQIRAPFSGVIGKRGALTGQYVQPGQSLYSLVP
DGAVWITANFKETQIQHMQPGQLVQVHLDAFPDQSFTGVIDSLAPASGAKFSLLPAENAT
GNFTKIVQRIPVRIRLDLDDQTNIVPGLSAVVKVDTRGAPKDTVIASNRKQVSVKATQ